Locus 4340

Sequence ID 3L_DroMel_CAF1
Location 12,755,843 – 12,755,963
Length 120
Max. P 0.690251
window6715

overview

Window 5

Location 12,755,843 – 12,755,963
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.50
Mean single sequence MFE -35.47
Consensus MFE -27.20
Energy contribution -28.08
Covariance contribution 0.88
Combinations/Pair 1.13
Mean z-score -1.69
Structure conservation index 0.77
SVM decision value 0.33
SVM RNA-class probability 0.690251
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12755843 120 + 23771897
UUUGGCUUCCAACCGGGACAACCGACUAUUAUUCCGUGUUAUGGAACUUACGGACCGACAGGAAAUCCAAUGAUUUUUGGUAUCCCGCCACCGACUCAAUAUGGAGGCUUUGGUGUACCU
...((...((((..((((..(((((..(((((((((((..........))))))......((....)).)))))..))))).))))(((.(((........))).))).))))....)). ( -32.70)
>DroSec_CAF1 12806 120 + 1
UAUGGCUUCCAGCCGGGACAACCAACUAUUAUUCCGUGUUAUGGAACCUACGGACCGUCAGGAAAUGCUAUGAUUUUUGGUAUCCCGCCACCCACUGAAUAUGGAGGCUUUGGUGUCCCU
...(((.....)))((((((.((((......(((((((((.(((......(((.((....))..((((((.......)))))).)))....)))...)))))))))...)))))))))). ( -37.90)
>DroSim_CAF1 15089 120 + 1
UAUGGCUUCCAGCCGGGACAACCGACUAUUAUUCCGUGUUAUGGAACCUACGGACCGUCAGGAAAUGCUAUGAUUUUUGGUAUCCCGCCACCGACUCAAUAUGGAGACUUUGGUGUCCCU
...(((.....)))((((((.((((......(((((((((..((...(....).))(((.((..((((((.......))))))....))...)))..)))))))))...)))))))))). ( -34.70)
>DroEre_CAF1 13039 120 + 1
UUUGGCUUCCAGCCGGGACAACCUACUAUUAUUCCGUGUUAUGGAACCUACGGACCGACCGGAAAUGCAAUGAUUUUUGGUAUUCCGCCACCUACCCAAUAUGGAAACUUUGGUGUCCCU
...(((.....)))((((((.((........(((((((((..((......((((...(((((((((......)))))))))..)))).......)).))))))))).....)))))))). ( -38.84)
>DroYak_CAF1 13261 120 + 1
UUUGGUUUUCAGCCGGGACAACCUACUAUUAUUCCGUGUUACGGAACCUACGGACCCACUGGCAAUGCAAUGAUUUUUGGCAUUCCACCACCGACUCAAUAUGGAAACUUUGGUGUCCCA
...(((.....)))((((((.((........(((((((((.(((...(....)......(((.(((((((......)).))))))))...)))....))))))))).....)))))))). ( -33.22)
>consensus
UUUGGCUUCCAGCCGGGACAACCGACUAUUAUUCCGUGUUAUGGAACCUACGGACCGACAGGAAAUGCAAUGAUUUUUGGUAUCCCGCCACCGACUCAAUAUGGAGACUUUGGUGUCCCU
...(((.....)))((((((.((((......(((((((((.(((..........((....))...............((((.....)))))))....)))))))))...)))))))))). (-27.20 = -28.08 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:59 2006